Animal-Genome cDNA 20110601C-002416


Search to RefSeqBP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-002416
         (1316 letters)

Database: RefSeq49_BP.fasta 
           33,088 sequences; 17,681,374 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_001011676.2| T-cell surface antigen CD2 [Bos taurus].          383   e-106
Alignment   gi|NP_001026929.2| hepatocyte cell adhesion molecule precursor ...    50   3e-06

>ref|NP_001011676.2| T-cell surface antigen CD2 [Bos taurus].
          Length = 338

 Score =  383 bits (983), Expect = e-106
 Identities = 190/340 (55%), Positives = 244/340 (71%)
 Frame = +3

Query: 108  MSLACTTLASFLLIFIVSNKGTVSQITEVVWGIVDQDINLDIPELSKHDNVDHIRWQKNE 287
            M+LAC  LASFLLIF V  KG   + + VVWG +D D+NLDIP   + D V  I+W +N+
Sbjct: 1    MNLACEILASFLLIFTVPTKGEDPE-SIVVWGALDHDLNLDIPGFPRSDIVADIKWNRNK 59

Query: 288  NKIAEFKKNKETHPVKDTYMMLPNGTLRIKDLKRDDEGIYKVTVYATDGKHMLERKFDLQ 467
            NKIA  KK+   H   D Y M  NGTL+IK L R+D G+Y+V VY ++G ++L +KFDL+
Sbjct: 60   NKIARIKKDMPLHNEMDKYDMFTNGTLKIKTLMRNDSGLYEVEVYDSNGVNLLSKKFDLK 119

Query: 468  ILDGVSKPVISWSCANKTVTCEVAEGSDPKLKLYVNKSTAREGRQKVILWKWNTKWSTLF 647
            I + +S P I+W C N+TV+C+V  GS+PKL+L++N +  ++   K+I + WNT+W+  F
Sbjct: 120  IQEMLSGPEINWICTNRTVSCKVENGSNPKLQLFLNTTRVKQDHGKLITYTWNTRWNKTF 179

Query: 648  KCVASNNASEQISMVTISCTGQGLDIYLIIGICGGGTVFLIFIALLIFYTSKRKKQSSRR 827
             CVASN+  +++S     C  +GLD+YLIIGIC GG VFL+F+ALLIFY S+RKKQS RR
Sbjct: 180  MCVASNHVDKKVSTEIAVCPDEGLDLYLIIGICVGGAVFLLFVALLIFYISRRKKQSRRR 239

Query: 828  NDEELEIRAKRASPEERGRKPHPFPGSTPQNPVISQTPPMPGHRSQAXXXXXXXXXXXVQ 1007
            +DEELEI+A+RA  EERGRKP   P STP NP +SQTPP+PGHRSQ            VQ
Sbjct: 240  DDEELEIKAQRAILEERGRKPQQTPVSTPANPGMSQTPPVPGHRSQPPAHRPRALGPRVQ 299

Query: 1008 HPQKKRPPPTPGTQVHQQKGPPLPKPRVQTKPTHEGKENS 1127
             PQ+KR PPTPGTQVHQQKGPPLPKPRVQTKP  + +ENS
Sbjct: 300  -PQQKRLPPTPGTQVHQQKGPPLPKPRVQTKPPCDAEENS 338


>ref|NP_001026929.2| hepatocyte cell adhesion molecule precursor [Bos taurus].
          Length = 418

 Score = 50.4 bits (119), Expect = 3e-06
 Identities = 56/277 (20%), Positives = 111/277 (40%), Gaps = 26/277 (9%)
 Frame = +3

Query: 87  RGKLAPKMSLACTTLASFLLIFIVSNKG----TVSQITEVVWGIVDQDINLDIPELSKHD 254
           R + AP  + +   LA F+ + ++  +      ++    ++ G V +   L +   S   
Sbjct: 3   REREAPSRAFSALRLAPFVYLLLIQTEPLEGVNITSPVRLIHGTVGKAALLSVQYSSTSS 62

Query: 255 NVDHIRWQKNENKIAEFKKNKETHPV-------KDTYMMLPNGTLRIKDLKRDDEGIYKV 413
           +   ++WQ   +K     ++  T  +       +D   +  NG+L + DL+  DEG Y+V
Sbjct: 63  DKPVVKWQLKRDKPVTVVQSIGTEVIGTLRPDYRDRIRLFENGSLLLSDLQLADEGTYEV 122

Query: 414 TVYATDGKHMLERKFDLQILDGVSKPVISWSCANK-------TVTCEVAEGSDPKLK-LY 569
            +  TD     E+  +L +   +S+P +  +           T+ C    G+ P    L 
Sbjct: 123 EISITDDTFTGEKTINLTVDVPISRPQVLVASTTVLELSEAFTLNCSHENGTKPSYTWLK 182

Query: 570 VNKSTAREGR------QKVI-LWKWNTKWSTLFKCVASNNASEQISMVTISCTGQGLDIY 728
             K    + R      QKV+ + +   +   L+ CV  N  S+  S        +   +Y
Sbjct: 183 DGKPLLNDSRMLLSPDQKVLTITRVLMEDDDLYSCVVENPISQGRSPPVKITVYRRSSLY 242

Query: 729 LIIGICGGGTVFLIFIALLIFYTSKRKKQSSRRNDEE 839
           +I+     G +FL+   + +    K  K+S ++   E
Sbjct: 243 IILST---GGIFLLVTLVTVCACWKPSKKSGKKRKLE 276


  Database: RefSeq49_BP.fasta
    Posted date:  Oct 17, 2011  1:42 PM
  Number of letters in database: 17,681,374
  Number of sequences in database:  33,088
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33088
Number of Hits to DB: 50,038,858
Number of extensions: 1420484
Number of successful extensions: 8804
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 8321
Number of HSP's successfully gapped: 2
Length of query: 438
Length of database: 17,681,374
Length adjustment: 105
Effective length of query: 333
Effective length of database: 14,207,134
Effective search space: 4730975622
Effective search space used: 4730975622
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)

Search to RefSeqCP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-002416
         (1316 letters)

Database: RefSeq49_CP.fasta 
           33,336 sequences; 18,874,504 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|XP_849219.1| PREDICTED: similar to T-cell surface antigen CD...   341   8e-94
Alignment   gi|XP_852267.1| PREDICTED: similar to hepatocyte cell adhesion ...    51   3e-06

>ref|XP_849219.1| PREDICTED: similar to T-cell surface antigen CD2 precursor (T-cell
            surface antigen T11/Leu-5) (LFA-2) (LFA-3 receptor)
            (Erythrocyte receptor) (Rosette receptor) [Canis
            familiaris].
          Length = 339

 Score =  341 bits (875), Expect = 8e-94
 Identities = 170/343 (49%), Positives = 223/343 (65%), Gaps = 3/343 (0%)
 Frame = +3

Query: 108  MSLACTTLASFLLIFIVSNKGTVSQITEVVWGIVDQDINLDIPELSKHDNVDHIRWQKNE 287
            M+LAC  LASFLLIF+   KG V + T++VWG +  D +LD      +  +DHIRW+K +
Sbjct: 1    MNLACQILASFLLIFVFYIKGEVLE-TKLVWGALGHDFDLDSAGFQMNAKIDHIRWEKGK 59

Query: 288  NKIAEFKKN--KETHPVKDTYMMLPNGTLRIKDLKRDDEGIYKVTVYATDGKHMLERKFD 461
             K+AE K    K+TH     Y +  NG L+IK L  +D  IYKV +Y  DGK +L R + 
Sbjct: 60   TKVAELKTGILKDTH---GKYNISTNGFLKIKHLMMNDSDIYKVAIYDKDGKSVLRRNYQ 116

Query: 462  LQILDGVSKPVISWSCANKTVTCEVAEGSDPKLKLYVNKSTAREG-RQKVILWKWNTKWS 638
            L+I + VS P I WSC N+++TCE+  G+DP L LYVN++  +      ++ W W ++  
Sbjct: 117  LKIQEKVSTPKILWSCGNQSLTCEITSGTDPTLMLYVNQTMIKNLLNMTIVQWNWTSQQE 176

Query: 639  TLFKCVASNNASEQISMVTISCTGQGLDIYLIIGICGGGTVFLIFIALLIFYTSKRKKQS 818
                C A N  S++     I+C+ +GLDIYLI+GICGGGT+F+IF+ LLIFY +KRKKQ+
Sbjct: 177  MTVSCTAKNEVSQKREEKIINCSEKGLDIYLIVGICGGGTIFIIFMTLLIFYINKRKKQN 236

Query: 819  SRRNDEELEIRAKRASPEERGRKPHPFPGSTPQNPVISQTPPMPGHRSQAXXXXXXXXXX 998
            SRRNDEEL  RA R + +E+GRKP  FPGSTP NP +SQ PP P HR+QA          
Sbjct: 237  SRRNDEELGPRAHRVTTKEKGRKPRQFPGSTPPNPAVSQPPPPPSHRAQAPCHRPPPPSH 296

Query: 999  XVQHPQKKRPPPTPGTQVHQQKGPPLPKPRVQTKPTHEGKENS 1127
             VQH Q+K+PP    TQVHQQKGPPLP+PRVQ KP H   E+S
Sbjct: 297  RVQHHQQKKPPAPSATQVHQQKGPPLPRPRVQPKPPHGATESS 339


>ref|XP_852267.1| PREDICTED: similar to hepatocyte cell adhesion molecule [Canis
           familiaris].
          Length = 418

 Score = 50.8 bits (120), Expect = 3e-06
 Identities = 52/277 (18%), Positives = 111/277 (40%), Gaps = 26/277 (9%)
 Frame = +3

Query: 87  RGKLAPKMSLACTTLASFLLIFIVSNKG----TVSQITEVVWGIVDQDINLDIPELSKHD 254
           R + AP  + +  +LA F+ + ++  +      ++    ++ G V +   L +   S   
Sbjct: 3   RERGAPSRAFSALSLAPFVYLLLIQTEPLEGVNITSPVRLIHGTVGKSALLSVQYSSTSS 62

Query: 255 NVDHIRWQKNENKIAEFKKNKETHPV-------KDTYMMLPNGTLRIKDLKRDDEGIYKV 413
           +   ++WQ   +K     ++  T  +       +D   +  NG+L + DL+  DEG Y+V
Sbjct: 63  DKPVVKWQLKRDKPVTVVQSIGTEVIGTLRPDYRDRIRLFENGSLLLSDLQLADEGTYEV 122

Query: 414 TVYATDGKHMLERKFDLQILDGVSKPVISWSCANK-------TVTCEVAEGSDP------ 554
            +  TD     E+  +L +   +S+P +  +           T+ C    G+ P      
Sbjct: 123 EISITDDTFTGEKTINLTVDVPISRPQVLVASTTVLELSEAFTLNCSHENGTKPSYTWLK 182

Query: 555 --KLKLYVNKSTAREGRQKVILWKWNTKWSTLFKCVASNNASEQISMVTISCTGQGLDIY 728
             K  L  ++       + + + +   +   L+ CV  N  S+  S+       +   +Y
Sbjct: 183 DGKPLLNDSRMLLSPDHKVLTITRVLMEDDDLYSCVVENPISQGRSLPIKITVYRRSSLY 242

Query: 729 LIIGICGGGTVFLIFIALLIFYTSKRKKQSSRRNDEE 839
           +I+     G +FL+   + +    K  K+S ++   E
Sbjct: 243 IILST---GGIFLLVTLVTVCACWKPSKKSGKKRKLE 276


  Database: RefSeq49_CP.fasta
    Posted date:  Oct 17, 2011  1:42 PM
  Number of letters in database: 18,874,504
  Number of sequences in database:  33,336
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33336
Number of Hits to DB: 52,218,058
Number of extensions: 1461572
Number of successful extensions: 9219
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 8830
Number of HSP's successfully gapped: 2
Length of query: 438
Length of database: 18,874,504
Length adjustment: 106
Effective length of query: 332
Effective length of database: 15,340,888
Effective search space: 5093174816
Effective search space used: 5093174816
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)

Search to RefSeqHP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-002416
         (1316 letters)

Database: RefSeq49_HP.fasta 
           32,964 sequences; 18,297,164 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_001758.2| T-cell surface antigen CD2 precursor [Homo sapi...   388   e-108

>ref|NP_001758.2| T-cell surface antigen CD2 precursor [Homo sapiens].
          Length = 351

 Score =  388 bits (996), Expect = e-108
 Identities = 198/346 (57%), Positives = 243/346 (70%), Gaps = 6/346 (1%)
 Frame = +3

Query: 108  MSLACTTLASFLLIFIVSNKGTVS-QITEVV--WGIVDQDINLDIPELSKHDNVDHIRWQ 278
            MS  C  +ASFLLIF VS+KG VS +IT  +  WG + QDINLDIP     D++D I+W+
Sbjct: 1    MSFPCKFVASFLLIFNVSSKGAVSKEITNALETWGALGQDINLDIPSFQMSDDIDDIKWE 60

Query: 279  K--NENKIAEFKKNKETHPVKDTYMMLPNGTLRIKDLKRDDEGIYKVTVYATDGKHMLER 452
            K  ++ KIA+F+K KET   KDTY +  NGTL+IK LK DD+ IYKV++Y T GK++LE+
Sbjct: 61   KTSDKKKIAQFRKEKETFKEKDTYKLFKNGTLKIKHLKTDDQDIYKVSIYDTKGKNVLEK 120

Query: 453  KFDLQILDGVSKPVISWSCANKTVTCEVAEGSDPKLKLYVNKSTAREGRQKVILWKWNTK 632
             FDL+I + VSKP ISW+C N T+TCEV  G+DP+L LY +    +   Q+VI  KW T 
Sbjct: 121  IFDLKIQERVSKPKISWTCINTTLTCEVMNGTDPELNLYQDGKHLKLS-QRVITHKWTTS 179

Query: 633  WSTLFKCVASNNASEQISMVTISCTGQGLDIYLIIGICGGGTVFLIFIALLIFYTSKRKK 812
             S  FKC A N  S++ S+  +SC  +GLDIYLIIGICGGG++ ++F+ALL+FY +KRKK
Sbjct: 180  LSAKFKCTAGNKVSKESSVEPVSCPEKGLDIYLIIGICGGGSLLMVFVALLVFYITKRKK 239

Query: 813  QSSRRNDEELEIRAKRASPEERGRKPHPFPGSTPQNPVISQ-TPPMPGHRSQAXXXXXXX 989
            Q SRRNDEELE RA R + EERGRKPH  P STPQNP  SQ  PP PGHRSQA       
Sbjct: 240  QRSRRNDEELETRAHRVATEERGRKPHQIPASTPQNPATSQHPPPPPGHRSQAPSHRPPP 299

Query: 990  XXXXVQHPQKKRPPPTPGTQVHQQKGPPLPKPRVQTKPTHEGKENS 1127
                VQH  +KRPP   GTQVHQQKGPPLP+PRVQ KP H   ENS
Sbjct: 300  PGHRVQHQPQKRPPAPSGTQVHQQKGPPLPRPRVQPKPPHGAAENS 345


  Database: RefSeq49_HP.fasta
    Posted date:  Oct 17, 2011  1:42 PM
  Number of letters in database: 18,297,164
  Number of sequences in database:  32,964
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 32964
Number of Hits to DB: 51,296,435
Number of extensions: 1446546
Number of successful extensions: 9015
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 8552
Number of HSP's successfully gapped: 1
Length of query: 438
Length of database: 18,297,164
Length adjustment: 106
Effective length of query: 332
Effective length of database: 14,802,980
Effective search space: 4914589360
Effective search space used: 4914589360
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)

Search to RefSeqMP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-002416
         (1316 letters)

Database: RefSeq49_MP.fasta 
           30,036 sequences; 15,617,559 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_038514.1| T-cell surface antigen CD2 precursor [Mus muscu...   286   2e-77
Alignment   gi|NP_653122.2| SLAM family member 7 precursor [Mus musculus].        55   9e-08
Alignment   gi|NP_780398.2| hepatocyte cell adhesion molecule precursor [Mu...    50   3e-06

>ref|NP_038514.1| T-cell surface antigen CD2 precursor [Mus musculus].
          Length = 344

 Score =  286 bits (733), Expect = 2e-77
 Identities = 144/332 (43%), Positives = 202/332 (60%), Gaps = 2/332 (0%)
 Frame = +3

Query: 114  LACTTLASFLLIFIVSNKGTVSQITEVVWGIVDQDINLDIPELSKHDNVDHIRWQKNENK 293
            + C  L SF L+F +S KG   +  E +WG++   I L+IP     D++D +RW +    
Sbjct: 1    MKCKFLGSFFLLFSLSGKGADCRDNETIWGVLGHGITLNIPNFQMTDDIDEVRWVRRGTL 60

Query: 294  IAEFKKNKETHPVKDTYMMLPNGTLRIKD-LKRDDEGIYKVTVYATDGKHMLERKFDLQI 470
            +AEFK+ K    + +TY +L NG+L+IK  + R+D G Y V VY T+G   LE+  D++I
Sbjct: 61   VAEFKRKKPPFLISETYEVLANGSLKIKKPMMRNDSGTYNVMVYGTNGMTRLEKDLDVRI 120

Query: 471  LDGVSKPVISWSCANKTVTCEVAEGSDPKLKLYVNKSTAREGRQKVILWKWNTKWSTLFK 650
            L+ VSKP+I W C N T+TC V +G+D +LKLY  ++      QK + ++W T  +  FK
Sbjct: 121  LERVSKPMIHWECPNTTLTCAVLQGTDFELKLYQGETLLNSLPQKNMSYQW-TNLNAPFK 179

Query: 651  CVASNNASEQISMVTISCTGQGLDIYLIIGICGGGTVFLIFIALLIFYTSKRKKQSSRRN 830
            C A N  S++  M  ++C  +GL  Y+ +G+  GG + ++ +AL IF   KR+K++ RR 
Sbjct: 180  CEAINPVSKESKMEVVNCPEKGLSFYVTVGVGAGGLLLVLLVALFIFCICKRRKRNRRRK 239

Query: 831  DEELEIRAKRASPEERGRKPHPFPGSTPQNPVISQTPPMPGHRSQAXXXXXXXXXXXV-Q 1007
            DEELEI+A R S  ERG KPH  P +  QN V  Q PP PGH  Q              +
Sbjct: 240  DEELEIKASRTSTVERGPKPHSTPAAAAQNSVALQAPPPPGHHLQTPGHRPLPPGHRTRE 299

Query: 1008 HPQKKRPPPTPGTQVHQQKGPPLPKPRVQTKP 1103
            H QKKRPPP+ GTQ+HQQKGPPLP+PRVQ KP
Sbjct: 300  HQQKKRPPPS-GTQIHQQKGPPLPRPRVQPKP 330


>ref|NP_653122.2| SLAM family member 7 precursor [Mus musculus].
          Length = 333

 Score = 55.5 bits (132), Expect = 9e-08
 Identities = 58/250 (23%), Positives = 108/250 (43%), Gaps = 21/250 (8%)
 Frame = +3

Query: 153 IVSNKGTVSQITEVVWGIVDQDINLDIPELSKHDNVDHIRWQKNENKIAEFKKNKETHPV 332
           + +  GT+ ++   + G V     L+I E+     VD++ W  N   +A  KK+  T   
Sbjct: 19  VTAASGTLKKVAGALDGSVT--FTLNITEIK----VDYVVWTFNTFFLAMVKKDGVTSQS 72

Query: 333 KDTY-MMLPNG--TLRIKDLKRDDEGIYKVTVYATDGKHMLERKFDLQILDGVSKPVISW 503
            +   ++ P+G  ++++  LK++D G Y+  +Y+T  +  L +++ L +   +S+P ++ 
Sbjct: 73  SNKERIVFPDGLYSMKLSQLKKNDSGAYRAEIYSTSSQASLIQEYVLHVYKHLSRPKVTI 132

Query: 504 S-CANKTVTCEV----AEGSDPKLKLYVNKSTAR------EGRQKVILWKWNTKWSTLFK 650
              +NK  TC +    +   D +   Y  K+  +      +G    I W+   K   L  
Sbjct: 133 DRQSNKNGTCVINLTCSTDQDGENVTYSWKAVGQGDNQFHDGATLSIAWRSGEKDQAL-T 191

Query: 651 CVASNNASEQISMVTIS---CTGQGLDIYLIIGI----CGGGTVFLIFIALLIFYTSKRK 809
           C+A N  S   S        C     D+  + GI    C    + L  + L IF+T   K
Sbjct: 192 CMARNPVSNSFSTPVFPQKLCEDAATDLTSLRGILYILCFSAVLILFAVLLTIFHTMWIK 251

Query: 810 KQSSRRNDEE 839
           K      D++
Sbjct: 252 KGKGCEEDKK 261


>ref|NP_780398.2| hepatocyte cell adhesion molecule precursor [Mus musculus].
          Length = 418

 Score = 50.4 bits (119), Expect = 3e-06
 Identities = 74/349 (21%), Positives = 136/349 (38%), Gaps = 60/349 (17%)
 Frame = +3

Query: 87   RGKLA-PKMSLACTTLASFLLIFIVSNKGT-VSQITEVVWGIVDQDINLDIPELSKHDNV 260
            RG L+    +L  +     LLI  V  +G  ++    ++ G V +   L +   S   + 
Sbjct: 5    RGALSRASRALRLSPFVYLLLIQPVPLEGVNITSPVRLIHGTVGKSALLSVQYSSTSSDK 64

Query: 261  DHIRWQKNENKIAEFKKNKETHPV-------KDTYMMLPNGTLRIKDLKRDDEGIYKVTV 419
              ++WQ   +K     ++  T  +       +D   +  NG+L + DL+  DEG Y+V +
Sbjct: 65   PVVKWQLKRDKPVTVVQSIGTEVIGTLRPDYRDRIRLFENGSLLLSDLQLADEGTYEVEI 124

Query: 420  YATDGKHMLERKFDLQILDGVSKPVISWSCANK-------TVTCEVAEGSDPKLK-LYVN 575
              TD     E+  +L +   +S+P +  +           T+ C    G+ P    L   
Sbjct: 125  SITDDTFTGEKTINLTVDVPISRPQVLVASTTVLELSEAFTLNCSHENGTKPSYTWLKDG 184

Query: 576  KSTAREGR------QKVI-LWKWNTKWSTLFKCVASNNASEQISMVTISCTGQGLDIYLI 734
            K    + R      QKV+ + +   +   L+ CV  N  S+  S+       +   +Y+I
Sbjct: 185  KPLLNDSRMLLSPDQKVLTITRVLMEDDDLYSCVVENPISQVRSLPVKITVYRRSSLYII 244

Query: 735  IGICGGGTVFLIFIALLIFYTSKRKKQSSRR--------------NDEELEIRA---KRA 863
            +     G +FL+   + +    K  K+S ++              ND+ L+  A    R+
Sbjct: 245  LST---GGIFLLVTLVTVCACWKPSKKSRKKRKLEKQNSLEYMDQNDDRLKSEADTLPRS 301

Query: 864  SPEER-------------GRKPHPFPGSTPQN------PVISQTPPMPG 953
              +ER               +P   P + P++      P  S +PP+PG
Sbjct: 302  GEQERKNPMALYILKDKDSSEPDENPATEPRSTTEPGPPGYSVSPPVPG 350


  Database: RefSeq49_MP.fasta
    Posted date:  Oct 17, 2011  1:42 PM
  Number of letters in database: 15,617,559
  Number of sequences in database:  30,036
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 30036
Number of Hits to DB: 43,514,459
Number of extensions: 1212948
Number of successful extensions: 7453
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 7021
Number of HSP's successfully gapped: 3
Length of query: 438
Length of database: 15,617,559
Length adjustment: 104
Effective length of query: 334
Effective length of database: 12,493,815
Effective search space: 4172934210
Effective search space used: 4172934210
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)

Search to RefSeqSP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-002416
         (1316 letters)

Database: RefSeq49_SP.fasta 
           24,897 sequences; 11,343,932 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_998941.1| T-cell surface antigen CD2 [Sus scrofa].             666   0.0  

>ref|NP_998941.1| T-cell surface antigen CD2 [Sus scrofa].
          Length = 340

 Score =  666 bits (1718), Expect = 0.0
 Identities = 326/340 (95%), Positives = 327/340 (96%)
 Frame = +3

Query: 108  MSLACTTLASFLLIFIVSNKGTVSQITEVVWGIVDQDINLDIPELSKHDNVDHIRWQKNE 287
            MSLACTTLASFLLIFIVSNKGTVSQITEVVWGIVDQDINLDIPELSKHDNVDHIRWQKNE
Sbjct: 1    MSLACTTLASFLLIFIVSNKGTVSQITEVVWGIVDQDINLDIPELSKHDNVDHIRWQKNE 60

Query: 288  NKIAEFKKNKETHPVKDTYMMLPNGTLRIKDLKRDDEGIYKVTVYATDGKHMLERKFDLQ 467
            NKIAEFKKNKETHPVKDTYMMLPNGTLRIKDLKRDDEGIYKVTVYATDGKHMLERKFDL 
Sbjct: 61   NKIAEFKKNKETHPVKDTYMMLPNGTLRIKDLKRDDEGIYKVTVYATDGKHMLERKFDLP 120

Query: 468  ILDGVSKPVISWSCANKTVTCEVAEGSDPKLKLYVNKSTAREGRQKVILWKWNTKWSTLF 647
            ILDGVSKPVISWSCA+KTVTCEVAEGSDPKLKLYVNKSTAREGRQKVILWKWNTKWSTLF
Sbjct: 121  ILDGVSKPVISWSCADKTVTCEVAEGSDPKLKLYVNKSTAREGRQKVILWKWNTKWSTLF 180

Query: 648  KCVASNNASEQISMVTISCTGQGLDIYLIIGICGGGTVFLIFIALLIFYTSKRKKQSSRR 827
            KCVASNNASEQISMVTISCTGQGLDIYLIIGICGGGTVFLIFIALLIFYTSKRKKQSSRR
Sbjct: 181  KCVASNNASEQISMVTISCTGQGLDIYLIIGICGGGTVFLIFIALLIFYTSKRKKQSSRR 240

Query: 828  NDEELEIRAKRASPEERGRKPHPFPGSTPQNPVISQTPPMPGHRSQAXXXXXXXXXXXVQ 1007
            NDEELEIRAKRASPEERGRKPHPFPGSTPQNPVISQTPPMPGHRSQA           VQ
Sbjct: 241  NDEELEIRAKRASPEERGRKPHPFPGSTPQNPVISQTPPMPGHRSQAPTPRPGPPGPRVQ 300

Query: 1008 HPQKKRPPPTPGTQVHQQKGPPLPKPRVQTKPTHEGKENS 1127
            HPQKKRPPPTPGTQVHQQKGPPLPKPRVQTKPTHE KENS
Sbjct: 301  HPQKKRPPPTPGTQVHQQKGPPLPKPRVQTKPTHEAKENS 340


  Database: RefSeq49_SP.fasta
    Posted date:  Oct 17, 2011  1:42 PM
  Number of letters in database: 11,343,932
  Number of sequences in database:  24,897
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24897
Number of Hits to DB: 32,228,744
Number of extensions: 908831
Number of successful extensions: 5437
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 5178
Number of HSP's successfully gapped: 1
Length of query: 438
Length of database: 11,343,932
Length adjustment: 102
Effective length of query: 336
Effective length of database: 8,804,438
Effective search space: 2958291168
Effective search space used: 2958291168
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)

Search to Sscrofa10_2

BLASTN 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-002416
         (1316 letters)

Database: Sscrofa_10.2.fasta 
           4582 sequences; 2,808,509,378 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Sscrofa_Chr04                                                         801   0.0  

>Sscrofa_Chr04 
||          Length = 143465943

 Score =  801 bits (404), Expect = 0.0
 Identities = 475/491 (96%), Gaps = 7/491 (1%)
 Strand = Plus / Minus

                                                                             
Query: 831       gatgaggagctggagataagagcgaagagagcgagccccgaggaaaggggccggaagccc 890
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113928822 gatgaggagctggagataagagcgaagagagcgagccccgaggaaaggggccggaagccc 113928763

                                                                             
Query: 891       catccatttccaggctcaactcctcaaaatccggtcatttcccaaactcctccaatgcct 950
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113928762 catccatttccaggctcaactcctcaaaatccggtcatttcccaaactcctccaatgcct 113928703

                                                                             
Query: 951       ggtcatcgttctcaggcacctactcctcgtcccgggcctcctggcccccgtgtccagcac 1010
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113928702 ggtcatcgttctcaggcacctactcctcgtcccgggcctcctggcccccgtgtccagcac 113928643

                                                                             
Query: 1011      ccacagaagaagaggcctcctcctaccccgggcacacaagttcaccagcaaaaaggccct 1070
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113928642 ccacagaagaagaggcctcctcctaccccgggcacacaagttcaccagcaaaaaggccct 113928583

                                                                             
Query: 1071      cccctccccaagcctcgagttcaaacaaaacctacccatgagggcaaagaaaactcataa 1130
                 ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 113928582 cccctccccaagcctcgagttcaaacaaaacctacccatgaggccaaagaaaactcataa 113928523

                                                                             
Query: 1131      ctctgtctcctgatgcgggtgtcccttcccctct-antaaaagagaacagaaactgtcct 1189
                 |||||||||||||||||| |||||||| |||||| | |||||||||||||||||||||||
Sbjct: 113928522 ctctgtctcctgatgcggttgtccctt-ccctctaattaaaagagaacagaaactgtcct 113928464

                                                                             
Query: 1190      ttccctgt-aaangcactgtggagtttctccact-caggcgcgcatgctagccgctt-ca 1246
                 || ||||| ||| ||||||||||||||||||||| |||||||||||||||||||||| ||
Sbjct: 113928463 tt-cctgtaaaaggcactgtggagtttctccactccaggcgcgcatgctagccgcttcca 113928405

                                                                             
Query: 1247      tcaagcgtgctctgcaggnngaccgggacagcgccccagcctagnagccac-gccctgtc 1305
                 ||||||||||||||||||  |||||||||||||||| |||| || |||||| ||||||||
Sbjct: 113928404 tcaagcgtgctctgcagggggaccgggacagcgcccaagcccaggagccacagccctgtc 113928345

                            
Query: 1306      tgtaccatcta 1316
                 |||||||||||
Sbjct: 113928344 tgtaccatcta 113928334



 Score =  563 bits (284), Expect = e-158
 Identities = 300/308 (97%)
 Strand = Plus / Minus

                                                                             
Query: 167       aggtacagtctctcaaattactgaggttgtctggggcatcgtggatcaagacatcaacct 226
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113941506 aggtacagtctctcaaattactgaggttgtctggggcatcgtggatcaagacatcaacct 113941447

                                                                             
Query: 227       ggacattcctgaactttcaaaacatgataacgtagatcatatacgatggcagaagaatga 286
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113941446 ggacattcctgaactttcaaaacatgataacgtagatcatatacgatggcagaagaatga 113941387

                                                                             
Query: 287       aaacaagatcgcagaatttnnnnnnnncaaagaaactcaccctgtgaaagacacatacat 346
                 |||||||||||||||||||        |||||||||||||||||||||||||||||||||
Sbjct: 113941386 aaacaagatcgcagaatttaaaaaaaacaaagaaactcaccctgtgaaagacacatacat 113941327

                                                                             
Query: 347       gatgttaccaaatggaactctgagaattaaagatctgaagagagatgatgagggtatcta 406
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113941326 gatgttaccaaatggaactctgagaattaaagatctgaagagagatgatgagggtatcta 113941267

                                                                             
Query: 407       caaggtaactgtctatgctacggatggaaaacacatgctggagagaaaatttgatttgca 466
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113941266 caaggtaactgtctatgctacggatggaaaacacatgctggagagaaaatttgatttgca 113941207

                         
Query: 467       gattctag 474
                 ||||||||
Sbjct: 113941206 gattctag 113941199



 Score =  462 bits (233), Expect = e-127
 Identities = 236/237 (99%)
 Strand = Plus / Minus

                                                                             
Query: 473       agatggggtctcaaaacctgtaatctcctggagctgtgccaacaaaacggtgacctgtga 532
                 ||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 113937127 agatggggtctcaaaacctgtaatctcatggagctgtgccaacaaaacggtgacctgtga 113937068

                                                                             
Query: 533       ggtagcagaaggaagtgaccctaagttaaaactgtatgtaaataagtccactgccagaga 592
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113937067 ggtagcagaaggaagtgaccctaagttaaaactgtatgtaaataagtccactgccagaga 113937008

                                                                             
Query: 593       aggtcgtcagaaggtcatcctgtggaagtggaacaccaaatggagcacattattcaagtg 652
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113937007 aggtcgtcagaaggtcatcctgtggaagtggaacaccaaatggagcacattattcaagtg 113936948

                                                                          
Query: 653       tgtggccagtaacaacgccagtgagcaaatcagcatggtgaccatcagttgtacggg 709
                 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113936947 tgtggccagtaacaacgccagtgagcaaatcagcatggtgaccatcagttgtacggg 113936891



 Score =  331 bits (167), Expect = 6e-88
 Identities = 170/171 (99%)
 Strand = Plus / Minus

                                                                             
Query: 1         gaaggaggcacgtggttaagctcgcaggaggtggattccatgggtgttaatttcagttcc 60
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113941806 gaaggaggcacgtggttaagctcgcaggaggtggattccatgggtgttaatttcagttcc 113941747

                                                                             
Query: 61        ttttgtaagaagagctcagaatcacaagagggaaacttgccccaaagatgagcctcgcat 120
                 ||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113941746 tttcgtaagaagagctcagaatcacaagagggaaacttgccccaaagatgagcctcgcat 113941687

                                                                    
Query: 121       gtacaaccttggccagcttcctcctgattttcattgtttccaacaaaggta 171
                 |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113941686 gtacaaccttggccagcttcctcctgattttcattgtttccaacaaaggta 113941636



 Score =  238 bits (120), Expect = 6e-60
 Identities = 123/124 (99%)
 Strand = Plus / Minus

                                                                             
Query: 708       gggcaaggtctggatatctatctcatcatcggcatctgcggaggaggcaccgtattcctc 767
                 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 113932974 gggcaaggtctggatatctatctcatcatcggcatctgcggaggaggcaccgtattcctc 113932915

                                                                             
Query: 768       atcttcatagcactactcatattctacaccagcaagaggaaaaagcagagcagcaggaga 827
                 ||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 113932914 atcttcatagcactactcatattctactccagcaagaggaaaaagcagagcagcaggaga 113932855

                     
Query: 828       aatg 831
                 ||||
Sbjct: 113932854 aatg 113932851


  Database: Sscrofa_10.2.fasta
    Posted date:  Nov 16, 2011 10:34 AM
  Number of letters in database: 2,808,509,378
  Number of sequences in database:  4582
  
Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.37    0.711     1.31 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Sequences: 4582
Number of Hits to DB: 40,152,083
Number of extensions: 290
Number of successful extensions: 290
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 285
Number of HSP's successfully gapped: 6
Length of query: 1316
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1295
Effective length of database: 2,808,413,156
Effective search space: 3636895037020
Effective search space used: 3636895037020
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 30 (60.0 bits)